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Author Details

Fergal Casey
Biogen Inc.
2006
28
14
Nevan J Krogan (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36806691RNASequest: An End-to-End Reproducible RNAseq Data Analysis and Publishing Framework.J Mol Biol2023
37131143scRNASequest: an ecosystem of scRNA-seq analysis, visualization, and publishing.BMC Genomics2023
36253414Characterizing the composition of iPSC derived cells from bulk transcriptomics data with CellMap.Sci Rep2022
34018310Benchmarking and optimization of a high-throughput sequencing based method for transgene sequence variant analysis in biotherapeutic cell line development.Biotechnol J2021
33901288Quickomics: exploring omics data in an intuitive, interactive and informative manner.Bioinformatics2021
33846644Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology.Nat Biotechnol2021
32064871Two Distinct Mechanisms of Inhibition of LpxA Acyltransferase Essential for Lipopolysaccharide Biosynthesis.J Am Chem Soc2020
30381354Interplay of Klebsiella pneumoniae <i>fabZ</i> and <i>lpxC</i> Mutations Leads to LpxC Inhibitor-Dependent Growth Resulting from Loss of Membrane Homeostasis.mSphere2018
30061293Mode of Action of the Monobactam LYS228 and Mechanisms Decreasing In Vitro Susceptibility in Escherichia coli and Klebsiella pneumoniae.Antimicrob Agents Chemother2018
30290135Simultaneous Viral Exposure and Protection from Neanderthal Introgression.Cell2018
27854236Correlation of BK Virus Neutralizing Serostatus With the Incidence of BK Viremia in Kidney Transplant Recipients.Transplantation2017
29285971Leveraging Multiple Populations across Time Helps Define Accurate Models of Human Evolution: A Reanalysis of the Lactase Persistence Adaptation.Hum Biol2017
25875950Discovering anti-platelet drug combinations with an integrated model of activator-inhibitor relationships, activator-activator synergies and inhibitor-inhibitor synergies.PLoS Comput Biol2015
26479923High-throughput screening using patient-derived tumor xenografts to predict clinical trial drug response.Nat Med2015
26294746Archaic inheritance: supporting high-altitude life in Tibet.J Appl Physiol (1985)2015
23841912Alternate virtual populations elucidate the type I interferon signature predictive of the response to rituximab in rheumatoid arthritis.BMC Bioinformatics2013
21859460Distinct configurations of protein complexes and biochemical pathways revealed by epistatic interaction network motifs.BMC Syst Biol2011
20643743Cattle demographic history modelled from autosomal sequence variation.Philos Trans R Soc Lond B Biol Sci2010
19994847Discovery of small molecule inhibitors of protein-protein interactions using combined ligand and target score normalization.J Chem Inf Model2009
18570372Web server to identify similarity of amino acid motifs to compounds (SAAMCO).J Chem Inf Model2008
18826301Approved drug mimics of short peptide ligands from protein interaction motifs.J Chem Inf Model2008
18805797Optimal stepwise experimental design for pairwise functional interaction studies.Bioinformatics2008
18999558Variational method for estimating the rate of convergence of Markov-chain Monte Carlo algorithms.Phys Rev E Stat Nonlin Soft Matter Phys2008
17309247Identification of potential small molecule peptidomimetics similar to motifs in proteins.J Chem Inf Model2007
17925353Extracting falsifiable predictions from sloppy models.Ann N Y Acad Sci2007
17922568Universally sloppy parameter sensitivities in systems biology models.PLoS Comput Biol2007
17591178Optimal experimental design in an epidermal growth factor receptor signalling and down-regulation model.IET Syst Biol2007
17155311Sloppy-model universality class and the Vandermonde matrix.Phys Rev Lett2006
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Collaborators

Denis C Shields
Conway Institute of Biomolecular and Biomedical Research, University College Dublin
Co-authored papers 7
Joshua J Waterfall
INSERM U, PSL Research University, Institut Curie Research Center
Co-authored papers 5
Yu H Sun
Co-authored papers 2
Xinmin Zhang
Co-authored papers 2
Gerard Cagney
Conway Institute of Biomedical and Biomolecular Sciences, University College Dublin
Co-authored papers 2
Nevan J Krogan (CM4AI)
University of California San Francisco
Co-authored papers 2
Wendell D Jones
Department of Bioinformatics and Clinical Systems
Co-authored papers 1
En Li
Co-authored papers 1
Hans Bitter
Co-authored papers 1
Shaolong Cao
the University of Texas MD Anderson Cancer Center
Co-authored papers 1
Andreas Scherer
Institute for Molecular Medicine Finland (FIMM), University of Helsinki
Co-authored papers 1
Joshua M Korn
Co-authored papers 1
Norman E Davey
The Institute of Cancer Research
Co-authored papers 1
Tim R Mercer
Australian Institute for Bioengineering and Nanotechnology, University of Queensland
Co-authored papers 1
Hong Fang
National Center for Toxicological Research (NCTR)
Co-authored papers 1
Robert Sebra
Icahn School of Medicine at Mount Sinai
Co-authored papers 1
Kavitha Venkatesan
Co-authored papers 1
Joseph Lehár
Co-authored papers 1
Peter Atadja
Co-authored papers 1
Pierre R Bushel
Co-authored papers 1
John E Monahan
Co-authored papers 1
William R Sellers
Co-authored papers 1
Joshua Xu
Co-authored papers 1
Wenzhong Xiao
Stanford University
Co-authored papers 1
Quan-Zhen Li
Co-authored papers 1
Patrick Aloy
Institucio Catalana de Recerca i Estudis Avancats (ICREA)
Co-authored papers 1
Darren J Fitzpatrick
Smurfit Institute of Genetics, Trinity College Dublin
Co-authored papers 1
Anupama Reddy
Co-authored papers 1
Chi-Min Ho
Vagelos College of Physicians and Surgeons, Columbia University
Co-authored papers 1
Rebecca Kusko
Immuneering Corporation
Co-authored papers 1
Release 1.2